Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168499.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_96, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 90779
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
File 1 of 2
Found at i:3105 original size:58 final size:57
Alignment explanation
Indices: 3019--3197 Score: 277
Period size: 58 Copynumber: 3.1 Consensus size: 57
3009 AAAATATTTT
* * * *
3019 TTTTTTGAAAATTTATTTTTAAGAAAAATTGATACTTTTAACTTTTCCTCAAAAATA
1 TTTTTTGAAAACTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATA
*
3076 TTTTTTGAAAAGCTTATTTTCAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATA
1 TTTTTTGAAAA-CTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATA
* *
3134 TTTTTTAGAAAACTTATTTTCAAAGAAAATTGATACTTTCAACTTTTCTTCAAAAATA
1 TTTTTT-GAAAACTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATA
3192 TTTTTT
1 TTTTTT
3198 TTGAATTTTA
Statistics
Matches: 112, Mismatches: 8, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
57 11 0.10
58 96 0.86
59 5 0.04
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (57 bp):
TTTTTTGAAAACTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATA
Found at i:3178 original size:30 final size:29
Alignment explanation
Indices: 3092--3187 Score: 76
Period size: 29 Copynumber: 3.3 Consensus size: 29
3082 GAAAAGCTTA
*
3092 TTTTCAAGGAAAATTGATACTTTCAACTT
1 TTTTCAAAGAAAATTGATACTTTCAACTT
* *
3121 TTTCTCAAA-AATATT--T--TTTAGAAAACTT
1 TTT-TCAAAGAAAATTGATACTTT---CAACTT
3149 ATTTTCAAAGAAAATTGATACTTTCAACTT
1 -TTTTCAAAGAAAATTGATACTTTCAACTT
3179 TTCTTCAAA
1 TT-TTCAAA
3188 AATATTTTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 21
0.66 0.06 0.27
Matches are distributed among these distances:
25 3 0.06
27 1 0.02
28 10 0.20
29 18 0.35
30 15 0.29
31 1 0.02
33 3 0.06
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.43
Consensus pattern (29 bp):
TTTTCAAAGAAAATTGATACTTTCAACTT
Found at i:3233 original size:11 final size:11
Alignment explanation
Indices: 3225--3281 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
3215 AGAATAAAAT
3225 AATAATAAA-AA
1 AATAA-AAATAA
*
3236 AATGAAAATGAA
1 AATAAAAAT-AA
3248 AATAAAAAT-A
1 AATAAAAATAA
**
3258 AAGGAAAATAA
1 AATAAAAATAA
3269 AATAAAAATAA
1 AATAAAAATAA
3280 AA
1 AA
3282 AGTATTAAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
10 11 0.30
11 16 0.43
12 10 0.27
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:3243 original size:6 final size:5
Alignment explanation
Indices: 3217--3281 Score: 53
Period size: 6 Copynumber: 12.4 Consensus size: 5
3207 ATTTAAAGAG
**
3217 AATAA AATAA TAAT-A AA-AA AATGAA AATGAA AATAAA AATAA AGGAA
1 AATAA AATAA -AATAA AATAA AAT-AA AAT-AA AAT-AA AATAA AATAA
3264 AATAA AATAAA AATAA AA
1 AATAA AAT-AA AATAA AA
3282 AGTATTAAAC
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
4 5 0.10
5 21 0.42
6 24 0.48
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (5 bp):
AATAA
Found at i:3266 original size:16 final size:15
Alignment explanation
Indices: 3245--3274 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
3235 AAATGAAAAT
3245 GAAAATAAAAATAAAG
1 GAAAAT-AAAATAAAG
3261 GAAAATAAAATAAA
1 GAAAATAAAATAAA
3275 AATAAAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (15 bp):
GAAAATAAAATAAAG
Found at i:3270 original size:21 final size:21
Alignment explanation
Indices: 3220--3280 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 21
3210 TAAAGAGAAT
*
3220 AAAATAATAAT-AAAA-AAATG
1 AAAATAA-AATAAAAATAAAGG
3240 AAAATGAAAATAAAAATAAAGG
1 AAAAT-AAAATAAAAATAAAGG
3262 AAAATAAAATAAAAATAAA
1 AAAATAAAATAAAAATAAA
3281 AAGTATTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
20 8 0.22
21 20 0.54
22 9 0.24
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (21 bp):
AAAATAAAATAAAAATAAAGG
Found at i:3327 original size:17 final size:17
Alignment explanation
Indices: 3307--3339 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3297 TAATCTAATA
3307 AATAAAT-TAATAAAAAT
1 AATAAATAT-ATAAAAAT
3324 AATAAATATATAAAAA
1 AATAAATATATAAAAA
3340 AAGAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AATAAATATATAAAAAT
Found at i:4154 original size:18 final size:18
Alignment explanation
Indices: 4131--4169 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
4121 GATAATATAT
*
4131 TAATTAATAGATAAACAA
1 TAATTAACAGATAAACAA
*
4149 TAATTAACAGATAAATAA
1 TAATTAACAGATAAACAA
4167 TAA
1 TAA
4170 CATATAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (18 bp):
TAATTAACAGATAAACAA
Found at i:4186 original size:8 final size:7
Alignment explanation
Indices: 4159--4304 Score: 67
Period size: 8 Copynumber: 20.7 Consensus size: 7
4149 TAATTAACAG
4159 ATAAATA
1 ATAAATA
4166 ATAACAT-
1 ATAA-ATA
4173 ATAAATA
1 ATAAATA
4180 GATAAATA
1 -ATAAATA
*
4188 A-ATAT-
1 ATAAATA
4193 ATAAATA
1 ATAAATA
* *
4200 TATTAACA
1 -ATAAATA
*
4208 GATAAAAA
1 -ATAAATA
*
4216 CATACATTA
1 -ATA-AATA
4225 ATAAATA
1 ATAAATA
*
4232 GT-AATA
1 ATAAATA
4238 ATAAATAA
1 ATAAAT-A
4246 ATAAATA
1 ATAAATA
4253 ATAAATA
1 ATAAATA
4260 CATAAA-A
1 -ATAAATA
*
4267 GATAAAGA
1 -ATAAATA
4275 A-AAAT-
1 ATAAATA
*
4280 ATATATA
1 ATAAATA
4287 ATATAA-A
1 ATA-AATA
4294 ATAAA-A
1 ATAAATA
4300 ATAAA
1 ATAAA
4305 ATACAAAAAA
Statistics
Matches: 108, Mismatches: 17, Indels: 29
0.70 0.11 0.19
Matches are distributed among these distances:
5 2 0.02
6 27 0.25
7 38 0.35
8 39 0.36
9 2 0.02
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.27
Consensus pattern (7 bp):
ATAAATA
Found at i:4190 original size:4 final size:4
Alignment explanation
Indices: 4173--4265 Score: 57
Period size: 4 Copynumber: 23.2 Consensus size: 4
4163 ATAATAACAT
* * * * * * *
4173 ATAA ATAG ATAA ATAA ATAT ATAA ATAT ATTA ACAG ATAA A-AA CATAC
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA -ATAA
* *
4221 ATTA ATAA ATAGTA AT-A ATAA ATAA ATAA AT-A ATAA ATAC ATAA A
1 ATAA ATAA ATA--A ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
4266 AGATAAAGAA
Statistics
Matches: 65, Mismatches: 18, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
3 8 0.12
4 53 0.82
5 1 0.02
6 3 0.05
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.28
Consensus pattern (4 bp):
ATAA
Found at i:4256 original size:18 final size:18
Alignment explanation
Indices: 4113--4256 Score: 57
Period size: 18 Copynumber: 8.1 Consensus size: 18
4103 AAATAAAATA
*
4113 AATAAA-AAGATAATATATT
1 AATAAATAA-ATAA-ATAAT
* * *
4132 AATTAATAGATAAACAAT
1 AATAAATAAATAAATAAT
* * *
4150 AATTAACAGATAAATAAT
1 AATAAATAAATAAATAAT
* * *
4168 AACATATAAATAGAT-A-
1 AATAAATAAATAAATAAT
*
4184 AATAAATATATAAAT-AT
1 AATAAATAAATAAATAAT
* * * *
4201 -ATTAACAGATAAAAACAT
1 AATAAATAAATAAATA-AT
* *
4219 ACATTAATAAAT-AGTAAT
1 A-ATAAATAAATAAATAAT
4237 AATAAATAAATAAATAAT
1 AATAAATAAATAAATAAT
4255 AA
1 AA
4257 ATACATAAAA
Statistics
Matches: 92, Mismatches: 26, Indels: 15
0.69 0.20 0.11
Matches are distributed among these distances:
16 22 0.24
17 10 0.11
18 40 0.43
19 11 0.12
20 9 0.10
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (18 bp):
AATAAATAAATAAATAAT
Found at i:4292 original size:21 final size:20
Alignment explanation
Indices: 4242--4302 Score: 59
Period size: 22 Copynumber: 2.9 Consensus size: 20
4232 GTAATAATAA
4242 ATAAATAAATAATAAATACAT
1 ATAAATAAATAA-AAATACAT
* * *
4263 AAAAGATAAAGAAAAATATAT
1 ATAA-ATAAATAAAAATACAT
4284 ATAATATAAAATAAAAATA
1 ATAA-AT-AAATAAAAATA
4303 AAATACAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
21 15 0.47
22 17 0.53
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (20 bp):
ATAAATAAATAAAAATACAT
Found at i:4718 original size:8 final size:8
Alignment explanation
Indices: 4667--4718 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
4657 GAGCAACGAT
4667 AAATAAAA
1 AAATAAAA
4675 AAA-AGAAA
1 AAATA-AAA
4683 AGAA-AAAA
1 A-AATAAAA
* *
4691 AGATCAAA
1 AAATAAAA
4699 AAATAAAA
1 AAATAAAA
4707 AAATAAAA
1 AAATAAAA
4715 AAAT
1 AAAT
4719 CCAACACATT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
7 2 0.05
8 32 0.86
9 3 0.08
ACGTcount: A:0.83, C:0.02, G:0.06, T:0.10
Consensus pattern (8 bp):
AAATAAAA
Found at i:4768 original size:54 final size:48
Alignment explanation
Indices: 4699--4811 Score: 122
Period size: 54 Copynumber: 2.2 Consensus size: 48
4689 AAAGATCAAA
*
4699 AAATAAAAAAATAAAA-AAATCCAACACATTATAAAAATTTATGAAAATATAAAT
1 AAATAAAAAAATAAAATAAA-CCAA-A-A-TA-AAAAATTAAT-AAAATA-AAAT
*
4753 AAATAAAGAAATAAAATAAACCAAAATAAAAAATTAATAAAATAAAAT
1 AAATAAAAAAATAAAATAAACCAAAATAAAAAATTAATAAAATAAAAT
*
4801 -AAGAAAAAAAT
1 AAATAAAAAAAT
4812 TAAAGCAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
47 9 0.17
48 4 0.07
49 6 0.11
50 9 0.17
51 2 0.04
52 1 0.02
53 1 0.02
54 19 0.35
55 3 0.06
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (48 bp):
AAATAAAAAAATAAAATAAACCAAAATAAAAAATTAATAAAATAAAAT
Found at i:4809 original size:26 final size:25
Alignment explanation
Indices: 4762--4814 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
4752 TAAATAAAGA
*
4762 AATAAAATAAACCAAAATAAAAAATT
1 AATAAAATAAAAC-AAATAAAAAATT
*
4788 AATAAAATAAAATAAGA-AAAAAATT
1 AATAAAATAAAACAA-ATAAAAAATT
4813 AA
1 AA
4815 AGCAAAACGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (25 bp):
AATAAAATAAAACAAATAAAAAATT
Found at i:4828 original size:43 final size:44
Alignment explanation
Indices: 4744--4828 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 44
4734 AATTTATGAA
*
4744 AATATAAATAAATAAAGAAATAAAATAAACCAAAATAAAAAATT
1 AATATAAATAAATAAAGAAATAAAATAAACCAAAACAAAAAATT
* *
4788 AATA-AAATAAA-ATAAGAAA-AAAATTAAAGCAAAACGAAAAA
1 AATATAAATAAATA-AAGAAATAAAA-TAAACCAAAACAAAAAA
4829 GATAAATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
42 5 0.14
43 27 0.75
44 4 0.11
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (44 bp):
AATATAAATAAATAAAGAAATAAAATAAACCAAAACAAAAAATT
Found at i:4886 original size:22 final size:24
Alignment explanation
Indices: 4825--4886 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 24
4815 AGCAAAACGA
4825 AAAAGATAAATAAAGTACACAAAAAG
1 AAAAGA-AAATAAA-TACACAAAAAG
* *
4851 AAAA-AAAATCAATAC-CAATAAG
1 AAAAGAAAATAAATACACAAAAAG
4873 AAAAGAAAA-AAATA
1 AAAAGAAAATAAATA
4887 AAAGACAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
22 14 0.44
23 7 0.22
24 6 0.19
25 1 0.03
26 4 0.12
ACGTcount: A:0.73, C:0.08, G:0.08, T:0.11
Consensus pattern (24 bp):
AAAAGAAAATAAATACACAAAAAG
Found at i:5009 original size:23 final size:24
Alignment explanation
Indices: 4970--5031 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 24
4960 CAAACAATTG
*
4970 GAAAAC-ATATAAGAAAT-AATA-A
1 GAAAACAATATAAAAAATCAA-AGA
4992 GAAAACAATATAAAAAATCAAAGA
1 GAAAACAATATAAAAAATCAAAGA
*
5016 GAAAAAAAT-TAAAAAA
1 GAAAACAATATAAAAAA
5032 GAGAGAAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 6 0.17
23 18 0.51
24 11 0.31
ACGTcount: A:0.73, C:0.05, G:0.08, T:0.15
Consensus pattern (24 bp):
GAAAACAATATAAAAAATCAAAGA
Found at i:5504 original size:18 final size:18
Alignment explanation
Indices: 5477--5528 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
5467 AAAAGAAAAT
* *
5477 TAAAATAATATAAAATAC
1 TAAAAAAATAAAAAATAC
* *
5495 TAAAAAAATAAAAAAAAG
1 TAAAAAAATAAAAAATAC
*
5513 TAAGAAAATAAAAAAT
1 TAAAAAAATAAAAAAT
5529 TATAGAATAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (18 bp):
TAAAAAAATAAAAAATAC
Found at i:6094 original size:21 final size:19
Alignment explanation
Indices: 6070--6112 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
6060 AAGCAAAAAG
*
6070 AAAAAGATAAAATAAGTAATA
1 AAAAAGAGAAAATAA--AATA
6091 AAAAAGAGAAAATAAAATA
1 AAAAAGAGAAAATAAAATA
6110 AAA
1 AAA
6113 TAAAACACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
21 14 0.67
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (19 bp):
AAAAAGAGAAAATAAAATA
Found at i:6105 original size:26 final size:25
Alignment explanation
Indices: 6064--6117 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 25
6054 GTATTAAAGC
6064 AAAAAGAAAAAGATAAAATAAGTAATA
1 AAAAAGAAAAAGATAAAATAA--AATA
*
6091 AAAAAGAGAAA-ATAAAATAAAATA
1 AAAAAGAAAAAGATAAAATAAAATA
6115 AAA
1 AAA
6118 CACAAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 7 0.27
26 9 0.35
27 10 0.38
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.13
Consensus pattern (25 bp):
AAAAAGAAAAAGATAAAATAAAATA
Found at i:6111 original size:31 final size:31
Alignment explanation
Indices: 6029--6115 Score: 88
Period size: 31 Copynumber: 2.8 Consensus size: 31
6019 CAATAAAAAT
* * *
6029 AAAAGAAAAAATAAAATAAAAGAAAGTATTAA
1 AAAAGAGAAAATAAAATAAAA-TAAGTAATAA
* *
6061 AGCAAAAAG-AAA-AAGATAAAATAAGTAATAA
1 A--AAAGAGAAAATAAAATAAAATAAGTAATAA
6092 AAAAGAGAAAATAAAATAAAATAA
1 AAAAGAGAAAATAAAATAAAATAA
6116 AACACAAAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
29 5 0.11
30 3 0.07
31 20 0.45
32 9 0.20
33 3 0.07
34 4 0.09
ACGTcount: A:0.75, C:0.01, G:0.10, T:0.14
Consensus pattern (31 bp):
AAAAGAGAAAATAAAATAAAATAAGTAATAA
Found at i:6179 original size:9 final size:9
Alignment explanation
Indices: 6167--6241 Score: 79
Period size: 9 Copynumber: 8.7 Consensus size: 9
6157 AAAAATTTAA
*
6167 AAAAAATAC
1 AAAAAATAG
*
6176 AAAAACTA-
1 AAAAAATAG
6184 ATAAAAAT-G
1 A-AAAAATAG
6193 AAAAAAT-G
1 AAAAAATAG
6201 AGAAAAAT-G
1 A-AAAAATAG
6210 AAAAAATAG
1 AAAAAATAG
6219 AAAAAATAG
1 AAAAAATAG
6228 -AAAAATAG
1 AAAAAATAG
6236 AAAAAA
1 AAAAAA
6242 ATTAATTTAT
Statistics
Matches: 59, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
8 23 0.39
9 36 0.61
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (9 bp):
AAAAAATAG
Found at i:6330 original size:15 final size:16
Alignment explanation
Indices: 6296--6345 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
6286 AATAAGATAT
* * *
6296 AAAGATATAAAAAATC
1 AAAGATAGAAAAATTA
6312 AAAGATA-AAAAATTA
1 AAAGATAGAAAAATTA
6327 AAAGA-AGAAAAAGTTA
1 AAAGATAGAAAAA-TTA
6343 AAA
1 AAA
6346 CAAAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 1 0.03
15 16 0.53
16 13 0.43
ACGTcount: A:0.72, C:0.02, G:0.10, T:0.16
Consensus pattern (16 bp):
AAAGATAGAAAAATTA
Found at i:6865 original size:7 final size:7
Alignment explanation
Indices: 6853--6957 Score: 50
Period size: 9 Copynumber: 13.6 Consensus size: 7
6843 ATTTTAAACC
6853 AAAATAA
1 AAAATAA
6860 AAAAT-A
1 AAAATAA
6866 AAAATAA
1 AAAATAA
*
6873 AATAAGAAA
1 AA-AA-TAA
6882 AAAGATAA
1 AAA-ATAA
6890 ATAAAGTACA
1 A-AAA-TA-A
6900 AAAATAATA
1 AAAAT-A-A
6909 AAAATATA
1 AAAATA-A
6917 AAAAGTAA
1 AAAA-TAA
*
6925 GAAAATGA
1 -AAAATAA
*
6933 AAAAGAA
1 AAAATAA
** *
6940 TGAATGA
1 AAAATAA
6947 AAAATAA
1 AAAATAA
6954 AAAA
1 AAAA
6958 GACAAAAAGA
Statistics
Matches: 75, Mismatches: 13, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
6 6 0.08
7 24 0.32
8 18 0.24
9 25 0.33
10 2 0.03
ACGTcount: A:0.75, C:0.01, G:0.09, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:6909 original size:20 final size:19
Alignment explanation
Indices: 6853--6920 Score: 68
Period size: 21 Copynumber: 3.5 Consensus size: 19
6843 ATTTTAAACC
6853 AAAATAAAAAATAA-AAAT
1 AAAATAAAAAATAATAAAT
*
6871 AAAATAAGAAAAAAGATAAAT
1 AAAATAA-AAAATA-ATAAAT
*
6892 AAAGTACAAAAATAATAAA-
1 AAAATA-AAAAATAATAAAT
*
6911 AATATAAAAA
1 AAAATAAAAA
6921 GTAAGAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
18 11 0.27
19 9 0.22
20 6 0.15
21 14 0.34
22 1 0.02
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.16
Consensus pattern (19 bp):
AAAATAAAAAATAATAAAT
Found at i:7314 original size:17 final size:17
Alignment explanation
Indices: 7294--7345 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
7284 TACAAAAAGT
7294 TTAAAACAATGAAAAAA
1 TTAAAACAATGAAAAAA
7311 TTAAAACAAAT-AAAAAA
1 TTAAAAC-AATGAAAAAA
* *
7328 TGAAAGCATATGAAAAAA
1 TTAAAACA-ATGAAAAAA
7346 AAAAAAAGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 1 0.03
17 20 0.67
18 9 0.30
ACGTcount: A:0.69, C:0.06, G:0.08, T:0.17
Consensus pattern (17 bp):
TTAAAACAATGAAAAAA
Found at i:7326 original size:18 final size:17
Alignment explanation
Indices: 7294--7327 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
7284 TACAAAAAGT
*
7294 TTAAAACAATGAAAAAA
1 TTAAAACAATAAAAAAA
7311 TTAAAACAAATAAAAAA
1 TTAAAAC-AATAAAAAA
7328 TGAAAGCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.18
Consensus pattern (17 bp):
TTAAAACAATAAAAAAA
Found at i:7574 original size:16 final size:18
Alignment explanation
Indices: 7542--7576 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
7532 AAATTAAGAG
7542 AAAATTTTAATATAAAAT
1 AAAATTTTAATATAAAAT
7560 AAAA-TTTAA-ATAAAAT
1 AAAATTTTAATATAAAAT
7576 A
1 A
7577 CTAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 5 0.29
18 4 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAATTTTAATATAAAAT
Found at i:7614 original size:15 final size:15
Alignment explanation
Indices: 7579--7631 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
7569 ATAAAATACT
*
7579 AAAAATAATTAAAAGTA
1 AAAAATAA-GAAAA-TA
7596 AAAAAGTAAGAAAATA
1 AAAAA-TAAGAAAATA
* *
7612 AAAAATTAGAGAATA
1 AAAAATAAGAAAATA
7627 AAAAA
1 AAAAA
7632 AATATAAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 13 0.41
16 7 0.22
17 9 0.28
18 3 0.09
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (15 bp):
AAAAATAAGAAAATA
Found at i:7719 original size:22 final size:25
Alignment explanation
Indices: 7694--7742 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
7684 TTTAGTTTAG
*
7694 AATAT-ACAAA-G-AAAAATAAAAA
1 AATATAACAAATGTAAAAAAAAAAA
7716 AATATAACAAATGTAAAAAAAAAAA
1 AATATAACAAATGTAAAAAAAAAAA
7741 AA
1 AA
7743 AAGATATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 5 0.22
23 5 0.22
24 1 0.04
25 12 0.52
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.14
Consensus pattern (25 bp):
AATATAACAAATGTAAAAAAAAAAA
Found at i:7765 original size:27 final size:29
Alignment explanation
Indices: 7694--7767 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 29
7684 TTTAGTTTAG
7694 AATATACAAAGAAAAATAAAAAAATATAACA
1 AATAT-CAAAGAAAAA-AAAAAAATATAACA
* *
7725 AATGT-AAAAAAAAAAAAAAAGATATAA-A
1 AATATCAAAGAAAAAAAAAAA-ATATAACA
7753 AA-ATCAAAGAAAAAA
1 AATATCAAAGAAAAAA
7768 GTGCAAACCA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
27 1 0.03
28 18 0.49
29 14 0.38
31 4 0.11
ACGTcount: A:0.77, C:0.04, G:0.05, T:0.14
Consensus pattern (29 bp):
AATATCAAAGAAAAAAAAAAAATATAACA
Found at i:7765 original size:29 final size:29
Alignment explanation
Indices: 7700--7767 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
7690 TTAGAATATA
* *
7700 CAAAGAAAAATAAAAAAATATAACAAATG
1 CAAAGAAAAAAAAAAAAATATAAAAAATG
*
7729 TAAA-AAAAAAAAAAAAGATATAAAAAAT-
1 CAAAGAAAAAAAAAAAA-ATATAAAAAATG
7757 CAAAGAAAAAA
1 CAAAGAAAAAA
7768 GTGCAAACCA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 14 0.42
29 19 0.58
ACGTcount: A:0.78, C:0.04, G:0.06, T:0.12
Consensus pattern (29 bp):
CAAAGAAAAAAAAAAAAATATAAAAAATG
Found at i:7947 original size:11 final size:11
Alignment explanation
Indices: 7933--7997 Score: 53
Period size: 11 Copynumber: 5.6 Consensus size: 11
7923 AAAATTTATG
*
7933 AAAATATAAAT
1 AAAATAAAAAT
7944 AAAA-AAGAAAT
1 AAAATAA-AAAT
*
7955 AAAA-AATAAACC
1 AAAATAA-AAA-T
7967 AAAATAAAAAAT
1 AAAAT-AAAAAT
7979 AAAAATAAAAAT
1 -AAAATAAAAAT
7991 AAAATAA
1 AAAATAA
7998 GAAAAAACAT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
10 1 0.02
11 24 0.53
12 10 0.22
13 8 0.18
14 2 0.04
ACGTcount: A:0.80, C:0.03, G:0.02, T:0.15
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:7960 original size:24 final size:23
Alignment explanation
Indices: 7933--8001 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 23
7923 AAAATTTATG
7933 AAAATATAAATAAAA-AAGAAATAA
1 AAAATA-AAATAAAATAAGAAAT-A
** *
7957 AAAATAAACCAAAATAAAAAATA
1 AAAATAAAATAAAATAAGAAATA
7980 AAAATAAAAATAAAATAAGAAA
1 AAAAT-AAAATAAAATAAGAAA
8002 AAACATTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
23 12 0.32
24 25 0.68
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.14
Consensus pattern (23 bp):
AAAATAAAATAAAATAAGAAATA
Found at i:7982 original size:6 final size:6
Alignment explanation
Indices: 7933--7994 Score: 56
Period size: 6 Copynumber: 10.5 Consensus size: 6
7923 AAAATTTATG
* * * **
7933 AAAATA TAAATA AAAA-A GAAATA AAAA-A TAAACC AAAATAA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT-A AAAATA
7980 AAAATA AAAATA AAA
1 AAAATA AAAATA AAA
7995 TAAGAAAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
5 8 0.18
6 31 0.70
7 5 0.11
ACGTcount: A:0.81, C:0.03, G:0.02, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:7994 original size:17 final size:16
Alignment explanation
Indices: 7933--8004 Score: 56
Period size: 17 Copynumber: 4.1 Consensus size: 16
7923 AAAATTTATG
7933 AAAATATAAATAAAAAA
1 AAAATA-AAATAAAAAA
*
7950 GAAATAAAA-AATAAACCA
1 AAAATAAAATAA-AAA--A
*
7968 AAATAAAAAATAAAAATA
1 AAA-ATAAAATAAAAA-A
7986 AAAATAAAATAAGAAAA
1 AAAATAAAATAA-AAAA
8003 AA
1 AA
8005 CATTAAAGCA
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
15 2 0.05
16 6 0.14
17 16 0.36
18 10 0.23
19 8 0.18
20 2 0.05
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.14
Consensus pattern (16 bp):
AAAATAAAATAAAAAA
Found at i:8017 original size:47 final size:47
Alignment explanation
Indices: 7933--8099 Score: 126
Period size: 47 Copynumber: 3.5 Consensus size: 47
7923 AAAATTTATG
* * *
7933 AAAATATAAATAAAAAAGAAATAAAAAATAAACCAAAATAAAAAATA
1 AAAATAAAAATAAAAAAGAAATAAAAAATAAACCAAAAGAAAAAAGA
* * *
7980 AAAATAAAAATAAAATAAGAAA-AAACATTAAAGCAAAAGAAAAAAGA
1 AAAATAAAAATAAAA-AAGAAATAAAAAATAAACCAAAAGAAAAAAGA
* * * * * *
8027 TAAAT-AAAGTGCAAAAAACAAAGAAAGAATCAATACCAATAAGAAAAGA-A
1 AAAATAAAAAT--AAAAAAGAAATAAAAAAT-AA-ACCAA-AAGAAAAAAGA
*
8077 AAAATAGAAAATAAACAA-AAATA
1 AAAATA-AAAATAAAAAAGAAATA
8100 TAATAAAAAT
Statistics
Matches: 94, Mismatches: 17, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
46 4 0.04
47 43 0.46
48 15 0.16
49 6 0.06
50 14 0.15
51 8 0.09
52 4 0.04
ACGTcount: A:0.74, C:0.06, G:0.07, T:0.13
Consensus pattern (47 bp):
AAAATAAAAATAAAAAAGAAATAAAAAATAAACCAAAAGAAAAAAGA
Found at i:8505 original size:17 final size:17
Alignment explanation
Indices: 8475--8519 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 17
8465 AAAAAAGAAT
8475 ATAAAAAAGTTTAAAAC-A
1 ATAAAAAA--TTAAAACAA
8493 ATGAAAAAATTAAAACAA
1 AT-AAAAAATTAAAACAA
8511 ATAAAAAAT
1 ATAAAAAAT
8520 GAAAGCGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 14 0.56
18 5 0.20
19 6 0.24
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.20
Consensus pattern (17 bp):
ATAAAAAATTAAAACAA
Found at i:8517 original size:18 final size:18
Alignment explanation
Indices: 8475--8518 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
8465 AAAAAAGAAT
*
8475 ATAAAAAAGTTTAAAACA
1 ATAAAAAAGATTAAAACA
*
8493 ATGAAAAA-ATTAAAACAA
1 ATAAAAAAGATTAAAAC-A
8511 ATAAAAAA
1 ATAAAAAA
8519 TGAAAGCGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.18
Consensus pattern (18 bp):
ATAAAAAAGATTAAAACA
Found at i:8622 original size:48 final size:48
Alignment explanation
Indices: 8570--8666 Score: 108
Period size: 48 Copynumber: 2.0 Consensus size: 48
8560 TTGAAAAATT
*
8570 ATAAAATAGA-ACAAAAAATAGAAAA-AAAAGACAAAATAGGAAAATAAA
1 ATAAAAAAGACACAAAAAATA-AAAATAAAA-ACAAAATAGGAAAATAAA
* * * * *
8618 ATAAAAAAGACTCACAAAATAAAAATAAAAATAAAATTGTAAAATAAA
1 ATAAAAAAGACACAAAAAATAAAAATAAAAACAAAATAGGAAAATAAA
8666 A
1 A
8667 ATTCTGAGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
48 29 0.71
49 12 0.29
ACGTcount: A:0.73, C:0.05, G:0.07, T:0.14
Consensus pattern (48 bp):
ATAAAAAAGACACAAAAAATAAAAATAAAAACAAAATAGGAAAATAAA
Found at i:8756 original size:7 final size:7
Alignment explanation
Indices: 8746--8786 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
8736 AGAAAAAAAT
8746 AAAATAC
1 AAAATAC
8753 AAAATAC
1 AAAATAC
8760 AAAATAC
1 AAAATAC
8767 AAAATAC
1 AAAATAC
8774 AAAATAC
1 AAAATAC
8781 AAAATA
1 AAAATA
8787 TATAAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATAC
Found at i:8763 original size:21 final size:21
Alignment explanation
Indices: 8739--8793 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 21
8729 AAAAGCAAGA
8739 AAAAAATAAAATACAAAATAC
1 AAAAAATAAAATACAAAATAC
* *
8760 AAAATACAAAATACAAAATAC
1 AAAAAATAAAATACAAAATAC
8781 AAAATATATAAAA
1 AAAA-A-ATAAAA
8794 AAATTTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.82
23 5 0.18
ACGTcount: A:0.75, C:0.09, G:0.00, T:0.16
Consensus pattern (21 bp):
AAAAAATAAAATACAAAATAC
Found at i:10091 original size:17 final size:17
Alignment explanation
Indices: 10071--10122 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
10061 ATAAAAAATT
10071 TTAAAACAATGAAAAAA
1 TTAAAACAATGAAAAAA
10088 TTAAAACAAAT-AAAAAA
1 TTAAAAC-AATGAAAAAA
* *
10105 TGAAAGCATATGAAAAAA
1 TTAAAACA-ATGAAAAAA
10123 ATAAGCAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 1 0.03
17 20 0.67
18 9 0.30
ACGTcount: A:0.69, C:0.06, G:0.08, T:0.17
Consensus pattern (17 bp):
TTAAAACAATGAAAAAA
Found at i:10103 original size:18 final size:18
Alignment explanation
Indices: 10061--10105 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
10051 AAAAAATAAT
*
10061 ATAAAAAATTTTAAAACA
1 ATAAAAAATATTAAAACA
*
10079 ATGAAAAA-ATTAAAACAA
1 ATAAAAAATATTAAAAC-A
10097 ATAAAAAAT
1 ATAAAAAAT
10106 GAAAGCATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.22
Consensus pattern (18 bp):
ATAAAAAATATTAAAACA
Found at i:10404 original size:24 final size:24
Alignment explanation
Indices: 10347--10405 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
10337 ATAAAATACT
*
10347 AAAATATAACAATTAAAAATAAAC
1 AAAATATAAAAATTAAAAATAAAC
* *
10371 AAAA-ACAAAAATTAGAGAATAAA-
1 AAAATATAAAAATTA-AAAATAAAC
10394 AAAATATAAAAA
1 AAAATATAAAAA
10406 GACAAAATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 12 0.41
24 17 0.59
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.17
Consensus pattern (24 bp):
AAAATATAAAAATTAAAAATAAAC
Found at i:10498 original size:12 final size:12
Alignment explanation
Indices: 10470--10524 Score: 56
Period size: 13 Copynumber: 4.3 Consensus size: 12
10460 ATATACAAAG
*
10470 AAAAACAAAAAAA
1 AAAAAC-AAAAAT
*
10483 AAAAACAAATAT
1 AAAAACAAAAAT
*
10495 AAAAAATCAAAGAT
1 -AAAAA-CAAAAAT
10509 AAAAACAAAAAT
1 AAAAACAAAAAT
10521 AAAA
1 AAAA
10525 GTCAAATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
12 14 0.39
13 16 0.44
14 6 0.17
ACGTcount: A:0.82, C:0.07, G:0.02, T:0.09
Consensus pattern (12 bp):
AAAAACAAAAAT
Found at i:10498 original size:14 final size:13
Alignment explanation
Indices: 10470--10524 Score: 58
Period size: 14 Copynumber: 4.2 Consensus size: 13
10460 ATATACAAAG
*
10470 AAAAACAAAAAAA
1 AAAAACAAAATAA
10483 AAAAACAAATATAA
1 AAAAACAAA-ATAA
*
10497 AAAATCAAAGATAA
1 AAAAACAAA-ATAA
*
10511 AAACA-AAAATAA
1 AAAAACAAAATAA
10523 AA
1 AA
10525 GTCAAATTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
12 6 0.17
13 12 0.33
14 18 0.50
ACGTcount: A:0.82, C:0.07, G:0.02, T:0.09
Consensus pattern (13 bp):
AAAAACAAAATAA
Found at i:16397 original size:12 final size:12
Alignment explanation
Indices: 16342--16398 Score: 53
Period size: 12 Copynumber: 4.6 Consensus size: 12
16332 TATTATTAAT
*
16342 TTATCAAAATAA
1 TTATTAAAATAA
* *
16354 TAATTAAAAATTGA
1 TTATT-AAAA-TAA
16368 TTATTAAAAT-A
1 TTATTAAAATAA
16379 TTCATTAAAATAA
1 TT-ATTAAAATAA
16392 TTATTAA
1 TTATTAA
16399 TATTTATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 3 0.08
12 17 0.46
13 11 0.30
14 6 0.16
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (12 bp):
TTATTAAAATAA
Found at i:16649 original size:16 final size:16
Alignment explanation
Indices: 16628--16672 Score: 83
Period size: 16 Copynumber: 2.9 Consensus size: 16
16618 TAAGATAATT
16628 TTTAAATTAATTATAA
1 TTTAAATTAATTATAA
16644 TTTAAATTAATTATAA
1 TTTAAATTAATTATAA
16660 TTTAAATT-ATTAT
1 TTTAAATTAATTAT
16673 TTATATTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
15 5 0.17
16 24 0.83
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTAAATTAATTATAA
Found at i:16882 original size:20 final size:19
Alignment explanation
Indices: 16853--16908 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
16843 AATTTATTTA
*
16853 ATAATTAATAACTATATATC
1 ATAATCAATAA-TATATATC
*
16873 ATAATCAATAATATATAATA
1 ATAATCAATAATATAT-ATC
* *
16893 AAAATTAATAATATAT
1 ATAATCAATAATATAT
16909 GGGAGCTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.16
20 26 0.84
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAATCAATAATATATATC
Found at i:16993 original size:4 final size:4
Alignment explanation
Indices: 16984--17026 Score: 54
Period size: 4 Copynumber: 11.0 Consensus size: 4
16974 ATAATAACTA
*
16984 AATT AATT AATAT AATT AATT -ATT AATT TATT AATT AA-T AATT
1 AATT AATT AAT-T AATT AATT AATT AATT AATT AATT AATT AATT
17027 GATACTAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
3 6 0.18
4 24 0.71
5 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (4 bp):
AATT
Found at i:16994 original size:28 final size:29
Alignment explanation
Indices: 16963--17025 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 29
16953 TGCTGCTAGA
16963 TAATAAT-ATTAA-TAATAACTAAATTAAT
1 TAATAATAATTAATTAATAA-TAAATTAAT
* **
16991 TAAT-ATAATTAATTATTAATTTATTAAT
1 TAATAATAATTAATTAATAATAAATTAAT
17019 TAATAAT
1 TAATAAT
17026 TGATACTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
27 2 0.07
28 20 0.69
29 7 0.24
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (29 bp):
TAATAATAATTAATTAATAATAAATTAAT
Found at i:17016 original size:8 final size:8
Alignment explanation
Indices: 16984--17026 Score: 54
Period size: 7 Copynumber: 5.5 Consensus size: 8
16974 ATAATAACTA
16984 AATTAATT
1 AATTAATT
16992 AATATAATT
1 AAT-TAATT
17001 AATT-ATT
1 AATTAATT
*
17008 AATTTATT
1 AATTAATT
17016 AATTAA-T
1 AATTAATT
17023 AATT
1 AATT
17027 GATACTAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
7 12 0.38
8 12 0.38
9 8 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (8 bp):
AATTAATT
Found at i:20280 original size:21 final size:20
Alignment explanation
Indices: 20238--20280 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
20228 TGAATTTTTA
* *
20238 GAAAAAGAAATTTTTGATTT
1 GAAAAAGAAATTTATGAATT
20258 GAAAAAGAAATTTGATGAATT
1 GAAAAAGAAATTT-ATGAATT
20279 GA
1 GA
20281 TGAATGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.49, C:0.00, G:0.19, T:0.33
Consensus pattern (20 bp):
GAAAAAGAAATTTATGAATT
Found at i:23035 original size:16 final size:16
Alignment explanation
Indices: 23011--23045 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
23001 CTAGATGACA
*
23011 TATCTTTAACAATTGG
1 TATCCTTAACAATTGG
23027 TATCCTTAACAATTGG
1 TATCCTTAACAATTGG
23043 TAT
1 TAT
23046 GAGATTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (16 bp):
TATCCTTAACAATTGG
Found at i:26109 original size:11 final size:10
Alignment explanation
Indices: 26095--26140 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
26085 TATAAATTAT
26095 TTATTAATAA
1 TTATTAATAA
26105 TTTATTAATAA
1 -TTATTAATAA
26116 TTATTAAT-A
1 TTATTAATAA
26125 TT-TTAATAA
1 TTATTAATAA
26134 TTATTAA
1 TTATTAA
26141 AAAGTCGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
8 5 0.15
9 6 0.18
10 12 0.36
11 10 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TTATTAATAA
Found at i:26109 original size:15 final size:16
Alignment explanation
Indices: 26064--26110 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 16
26054 ATTGTTATAG
*
26064 TTATATTAATTATTTTTA
1 TTATATAAATTA--TTTA
26082 TTATATAAATTATTTA
1 TTATATAAATTATTTA
*
26098 TTA-ATAATTTATT
1 TTATATAAATTATT
26111 AATAATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 9 0.33
16 7 0.26
18 11 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATATAAATTATTTA
Found at i:26121 original size:21 final size:18
Alignment explanation
Indices: 26095--26140 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 18
26085 TATAAATTAT
26095 TTATTAATAATTTATTAATAA
1 TTATTAAT-A-TT-TTAATAA
26116 TTATTAATATTTTAATAA
1 TTATTAATATTTTAATAA
26134 TTATTAA
1 TTATTAA
26141 AAAGTCGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.56
19 2 0.08
20 1 0.04
21 8 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATTAATATTTTAATAA
Found at i:26649 original size:18 final size:18
Alignment explanation
Indices: 26607--26649 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
26597 AAATTATGAT
*
26607 ATTAAAAATAAATTAATA
1 ATTAAAATTAAATTAATA
26625 ATT-AAATTAATATTAA-A
1 ATTAAAATTAA-ATTAATA
26642 ATTAAAAT
1 ATTAAAAT
26650 CCTTATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTAAAATTAAATTAATA
Found at i:26794 original size:28 final size:30
Alignment explanation
Indices: 26731--26800 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
26721 TGATGACCAA
*
26731 ATTATATATTATTTACTAAATAATATAACT
1 ATTATATATTATTTACTAAATAATAAAACT
* *
26761 AATATAT-TTATATTA-TAAAT-ATAAAATT
1 ATTATATATTAT-TTACTAAATAATAAAACT
26789 ATTATAATATTA
1 ATTAT-ATATTA
26801 GTAATAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
28 10 0.30
29 11 0.33
30 12 0.36
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (30 bp):
ATTATATATTATTTACTAAATAATAAAACT
Found at i:26824 original size:19 final size:20
Alignment explanation
Indices: 26788--26829 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
26778 AATATAAAAT
* *
26788 TATTATAATATTAGTAATAA
1 TATTATAATACTAATAATAA
26808 TATT-TAATACTAATAATAA
1 TATTATAATACTAATAATAA
26827 TAT
1 TAT
26830 CATTATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
TATTATAATACTAATAATAA
Found at i:26910 original size:24 final size:25
Alignment explanation
Indices: 26883--26932 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
26873 GAATATTACT
*
26883 ATTAGTATTATTATAAT-TTTTAAA
1 ATTAGTATTAATATAATATTTTAAA
* *
26907 ATTATTTTTAATATAATATTTTAAA
1 ATTAGTATTAATATAATATTTTAAA
26932 A
1 A
26933 ATAATTAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
ATTAGTATTAATATAATATTTTAAA
Found at i:26915 original size:12 final size:12
Alignment explanation
Indices: 26895--26938 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
26885 TAGTATTATT
26895 ATAATTTTTAAA
1 ATAATTTTTAAA
* *
26907 ATTATTTTTAAT
1 ATAATTTTTAAA
26919 ATAATATTTTAAAA
1 ATAAT-TTTT-AAA
26933 ATAATT
1 ATAATT
26939 AGAAAGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
12 14 0.54
13 5 0.19
14 7 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATAATTTTTAAA
Found at i:27155 original size:22 final size:19
Alignment explanation
Indices: 27107--27192 Score: 64
Period size: 19 Copynumber: 4.1 Consensus size: 19
27097 TAGTTACTAA
27107 TAATTATTAAATTATTTAT
1 TAATTATTAAATTATTTAT
* *
27126 AAATTATTAATTTATTATATT
1 TAATTATTAAATTATT-TA-T
*
27147 TAATATATTATCAAATATAATTAT
1 TAAT-TA-T-T-AAAT-TATTTAT
*
27171 ATAATTAATAAATTATTTAT
1 -TAATTATTAAATTATTTAT
27191 TA
1 TA
27193 TGATAAAGTA
Statistics
Matches: 52, Mismatches: 7, Indels: 16
0.69 0.09 0.21
Matches are distributed among these distances:
19 16 0.31
20 8 0.15
21 8 0.15
22 3 0.06
23 1 0.02
24 4 0.08
25 9 0.17
26 3 0.06
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATTATTAAATTATTTAT
Found at i:27492 original size:23 final size:21
Alignment explanation
Indices: 27441--27494 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
27431 TGATAAGAAT
*
27441 TAATTATATTAATCAATAGTTA
1 TAATTATA-TAATCAATAATTA
*
27463 -AAATATATAATCAATTATATTA
1 TAATTATATAATCAA-TA-ATTA
27485 TAATTATATA
1 TAATTATATA
27495 CTATTATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 7 0.27
21 8 0.31
22 3 0.12
23 8 0.31
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (21 bp):
TAATTATATAATCAATAATTA
Found at i:27709 original size:35 final size:34
Alignment explanation
Indices: 27668--27736 Score: 97
Period size: 32 Copynumber: 2.0 Consensus size: 34
27658 AATATTATTA
*
27668 ATTTATTATTACTATTAA-ATAAGTT-AATTAATT
1 ATTT-TTATTAATATTAATATAAGTTAAATTAATT
27701 ATTTTTATTAATATTAATATAAGTTCAAATTAATT
1 ATTTTTATTAATATTAATATAAGTT-AAATTAATT
27736 A
1 A
27737 AATACAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 12 0.38
33 11 0.34
35 9 0.28
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (34 bp):
ATTTTTATTAATATTAATATAAGTTAAATTAATT
Found at i:27913 original size:16 final size:16
Alignment explanation
Indices: 27889--27961 Score: 62
Period size: 16 Copynumber: 4.6 Consensus size: 16
27879 CCTAATTAAC
*
27889 TCTAATATATTATAAT
1 TCTATTATATTATAAT
*
27905 TCTATTATAATATAAT
1 TCTATTATATTATAAT
* *
27921 T-AATTAAATATATAAT
1 TCTATTATAT-TATAAT
27937 T-TATTATAATTA-AAT
1 TCTATTAT-ATTATAAT
*
27952 TCTATAATAT
1 TCTATTATAT
27962 AAGAGTAATA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
15 11 0.24
16 33 0.72
17 2 0.04
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (16 bp):
TCTATTATATTATAAT
Found at i:28037 original size:35 final size:35
Alignment explanation
Indices: 27982--28094 Score: 122
Period size: 35 Copynumber: 3.1 Consensus size: 35
27972 TATTATAAAG
* *
27982 TTATAATTTAATAATTTAATAAATTATATTGTATTA
1 TTATAA-TAAATAATTTAATAAATTATATTATATTA
28018 TTATAATAAATAATTTAATAAATTATATTAT-TTAA
1 TTATAATAAATAATTTAATAAATTATATTATATT-A
* *
28053 ATATAATATAATAATTATAAGTTAA-TATATTAATATTA
1 TTATAATA-AATAATT-TAA-TAAATTATATT-ATATTA
28091 TTAT
1 TTAT
28095 TATTATTATT
Statistics
Matches: 66, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
34 2 0.03
35 31 0.47
36 13 0.20
37 9 0.14
38 9 0.14
39 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.50
Consensus pattern (35 bp):
TTATAATAAATAATTTAATAAATTATATTATATTA
Found at i:28068 original size:27 final size:30
Alignment explanation
Indices: 28013--28071 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 30
28003 AATTATATTG
*
28013 TATTATTATAATAAATAATTTAATAAATTA
1 TATTATTATAATAAATAATATAATAAATTA
*
28043 TATTATT-TAA-ATATAATATAAT-AATTA
1 TATTATTATAATAAATAATATAATAAATTA
28070 TA
1 TA
28072 AGTTAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 7 0.26
28 10 0.37
29 3 0.11
30 7 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
TATTATTATAATAAATAATATAATAAATTA
Found at i:28094 original size:3 final size:3
Alignment explanation
Indices: 28080--28110 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
28070 TAAGTTAATA
*
28080 TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
28111 TATAATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:28282 original size:17 final size:17
Alignment explanation
Indices: 28251--28292 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
28241 AGTTTTTACA
28251 ATTTCAATAATTATTT-
1 ATTTCAATAATTATTTG
*
28267 ATTTCAAATCATTATTTG
1 ATTTC-AATAATTATTTG
28285 ATTT-AATA
1 ATTTCAATA
28293 TGAAAGAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 8 0.36
17 10 0.45
18 4 0.18
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.52
Consensus pattern (17 bp):
ATTTCAATAATTATTTG
Found at i:28384 original size:16 final size:16
Alignment explanation
Indices: 28327--28386 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 16
28317 TTTATCTTTG
* *
28327 ATTAATTTTTA-TGAT
1 ATTAATATTTATTAAT
*
28342 ATTAATATTT-TAAAT
1 ATTAATATTTATTAAT
* * *
28357 ATTAACAATTATTCAT
1 ATTAATATTTATTAAT
28373 ATTAATATTTATTA
1 ATTAATATTTATTA
28387 TTAATATGAT
Statistics
Matches: 33, Mismatches: 10, Indels: 3
0.72 0.22 0.07
Matches are distributed among these distances:
15 19 0.58
16 14 0.42
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (16 bp):
ATTAATATTTATTAAT
Found at i:28776 original size:31 final size:33
Alignment explanation
Indices: 28741--28819 Score: 87
Period size: 31 Copynumber: 2.5 Consensus size: 33
28731 ATAACATTCA
*
28741 AATTTTAAATATAATATT-AATT-AA-TAATATT
1 AATTTTAAA-ATAATATTAAATTAAATTAATAAT
28772 AA-TTTAAAATAAT-TTAAATTAAATTAATAAT
1 AATTTTAAAATAATATTAAATTAAATTAATAAT
*
28803 AATATTAACAATAATAT
1 AATTTTAA-AATAATAT
28820 GATTTACGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
28 2 0.05
29 9 0.22
30 8 0.20
31 10 0.25
32 4 0.10
33 6 0.15
34 1 0.03
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (33 bp):
AATTTTAAAATAATATTAAATTAAATTAATAAT
Found at i:28793 original size:15 final size:16
Alignment explanation
Indices: 28745--28819 Score: 68
Period size: 15 Copynumber: 4.8 Consensus size: 16
28735 CATTCAAATT
28745 TTAAATATAATATT-AA
1 TTAAA-ATAATATTAAA
*
28761 TT--AATAATATTAAT
1 TTAAAATAATATTAAA
28775 TTAAAATAAT-TTAAA
1 TTAAAATAATATTAAA
* *
28790 TTAAATTAATAATAATA
1 TTAAAATAATATTAA-A
28807 TTAACAATAATAT
1 TTAA-AATAATAT
28820 GATTTACGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
13 8 0.17
14 4 0.09
15 13 0.28
16 11 0.23
17 5 0.11
18 6 0.13
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (16 bp):
TTAAAATAATATTAAA
Found at i:29050 original size:14 final size:14
Alignment explanation
Indices: 29033--29123 Score: 57
Period size: 14 Copynumber: 6.6 Consensus size: 14
29023 TTTATAATCT
29033 TTAATTAATTATAA
1 TTAATTAATTATAA
*
29047 TTAATT-ATCAT-A
1 TTAATTAATTATAA
*
29059 -T-ATTATTTATAGCA
1 TTAATTAATTATA--A
* * *
29073 ATAATTTATTAAAA
1 TTAATTAATTATAA
29087 TTAAATTAATTA-AA
1 TT-AATTAATTATAA
*
29101 TAAATTAAATTATAA
1 TTAATT-AATTATAA
29116 TTAATTAA
1 TTAATTAA
29124 AGATTATAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 18
0.67 0.12 0.21
Matches are distributed among these distances:
10 3 0.05
11 4 0.07
12 1 0.02
13 8 0.14
14 19 0.33
15 16 0.28
16 7 0.12
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (14 bp):
TTAATTAATTATAA
Found at i:29063 original size:24 final size:23
Alignment explanation
Indices: 29036--29122 Score: 65
Period size: 24 Copynumber: 3.8 Consensus size: 23
29026 ATAATCTTTA
29036 ATTAATTATAATTAATTATCATAT
1 ATTAATTATAATTAATTAT-ATAT
* *
29060 ATTATTTATAGCAATAATT-TAT-T
1 ATTAATTATA--ATTAATTATATAT
* * *
29083 A-AAATTA-AATTAATTAAATAA
1 ATTAATTATAATTAATTATATAT
29104 ATTAAATTATAATTAATTA
1 ATT-AATTATAATTAATTA
29123 AAGATTATAA
Statistics
Matches: 48, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
19 6 0.12
20 2 0.04
21 2 0.04
22 4 0.08
23 7 0.15
24 20 0.42
25 1 0.02
26 6 0.12
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (23 bp):
ATTAATTATAATTAATTATATAT
Found at i:29094 original size:5 final size:5
Alignment explanation
Indices: 29084--29124 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
29074 TAATTTATTA
29084 AAATT AAATT -AATT AAA-T AAATT AAATT ATAATT -AATT AAA
1 AAATT AAATT AAATT AAATT AAATT AAATT A-AATT AAATT AAA
29125 GATTATAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
4 12 0.38
5 16 0.50
6 4 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AAATT
Found at i:29099 original size:9 final size:9
Alignment explanation
Indices: 29085--29124 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
29075 AATTTATTAA
29085 AATTAAATT
1 AATTAAATT
*
29094 AATTAAATA
1 AATTAAATT
29103 AATTAAATT
1 AATTAAATT
29112 -A-T-AATT
1 AATTAAATT
29118 AATTAAA
1 AATTAAA
29125 GATTATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
6 4 0.15
7 2 0.08
8 2 0.08
9 18 0.69
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AATTAAATT
Found at i:29133 original size:24 final size:23
Alignment explanation
Indices: 29080--29137 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
29070 GCAATAATTT
*
29080 ATTA-AAATTAAATTAATTAAAT
1 ATTATAAATTAAATTAATTAAAG
*
29102 A-AATTAAATTATAATTAATTAAAG
1 ATTA-TAAATTA-AATTAATTAAAG
29126 ATTATAAATTAA
1 ATTATAAATTAA
29138 TAGATTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
21 1 0.03
22 1 0.03
23 7 0.24
24 19 0.66
25 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (23 bp):
ATTATAAATTAAATTAATTAAAG
Found at i:29578 original size:24 final size:22
Alignment explanation
Indices: 29538--29588 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 22
29528 ATTTATCATT
*
29538 TAATATTTTAATTATAATTTAA
1 TAATATTTTAATTATAAATTAA
*
29560 TAATATTTAATAATTATAAATTAC
1 TAATATTT--TAATTATAAATTAA
29584 TAATA
1 TAATA
29589 AATGTATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 8 0.32
24 17 0.68
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TAATATTTTAATTATAAATTAA
Found at i:29735 original size:27 final size:26
Alignment explanation
Indices: 29705--29764 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 26
29695 GTATAATTTT
29705 TATAATTATATTATAATAA-AAATA-A
1 TATAATTATATT-TAATAATAAATATA
*
29730 TAT-ATATAAATTTAATAATAAATATA
1 TATAAT-TATATTTAATAATAAATATA
29756 -ATAATTATA
1 TATAATTATA
29765 ATGGTTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
24 8 0.28
25 18 0.62
26 3 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
TATAATTATATTTAATAATAAATATA
Found at i:29765 original size:18 final size:18
Alignment explanation
Indices: 29716--29766 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
29706 ATAATTATAT
** *
29716 TATAATAAAAATAATATA
1 TATAATAATTATAATAAA
*
29734 TATAA-ATTTAATAATAAA
1 TATAATAATT-ATAATAAA
29752 TATAATAATTATAAT
1 TATAATAATTATAAT
29767 GGTTTAATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
17 1 0.04
18 22 0.85
19 3 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TATAATAATTATAATAAA
Found at i:30061 original size:6 final size:6
Alignment explanation
Indices: 30050--30085 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
30040 AACTATTAAT
*
30050 AATATA AATATA AATATA AATATA AAT-TA ATTATA A
1 AATATA AATATA AATATA AATATA AATATA AATATA A
30086 TTTAATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
AATATA
Found at i:30071 original size:21 final size:21
Alignment explanation
Indices: 30027--30071 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
30017 AATATTAATT
* *
30027 ATAATATATAATTAACTATTA
1 ATAATATATAATTAAATATAA
30048 ATAATATA-AATATAAATATAA
1 ATAATATATAAT-TAAATATAA
30069 ATA
1 ATA
30072 TAAATTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAATATATAATTAAATATAA
Found at i:30084 original size:17 final size:17
Alignment explanation
Indices: 30020--30085 Score: 62
Period size: 17 Copynumber: 3.6 Consensus size: 17
30010 TTTAGAAAAT
30020 ATTAATTAT-AATATATA
1 ATTAATTATAAATATA-A
*
30037 ATTAACTATTAATAATATAA
1 ATTAATTA-T-A-AATATAA
*
30057 ATATAAATATAAATATAA
1 AT-TAATTATAAATATAA
30075 ATTAATTATAA
1 ATTAATTATAA
30086 TTTAATTATA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
17 15 0.37
18 10 0.24
19 1 0.02
20 4 0.10
21 11 0.27
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTAATTATAAATATAA
Found at i:30086 original size:6 final size:6
Alignment explanation
Indices: 30022--30098 Score: 54
Period size: 6 Copynumber: 12.8 Consensus size: 6
30012 TAGAAAATAT
* * *
30022 TAATTA TAATATA TAATTA -ACTATTAA TAA-TA TAAATA TAAATA TAAATA
1 TAATTA TAAT-TA TAATTA TA--ATT-A TAATTA TAATTA TAATTA TAATTA
*
30072 TAAAT- TAATTA TAATT- TAATTA TAATT
1 TAATTA TAATTA TAATTA TAATTA TAATT
30099 CAAAATTGAT
Statistics
Matches: 62, Mismatches: 1, Indels: 16
0.78 0.01 0.20
Matches are distributed among these distances:
5 14 0.23
6 36 0.58
7 10 0.16
8 1 0.02
9 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (6 bp):
TAATTA
Found at i:30327 original size:13 final size:13
Alignment explanation
Indices: 30309--30340 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
30299 TATTAACAAT
30309 TATAATAAATATA
1 TATAATAAATATA
*
30322 TATAATAATTATA
1 TATAATAAATATA
30335 TATAAT
1 TATAAT
30341 TATACATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TATAATAAATATA
Found at i:30609 original size:16 final size:16
Alignment explanation
Indices: 30588--30764 Score: 56
Period size: 17 Copynumber: 11.1 Consensus size: 16
30578 ATTAAATTGT
30588 TAATT-ATATAATATAA
1 TAATTAATAT-ATATAA
30604 TAATTAATATATATAA
1 TAATTAATATATATAA
* *
30620 T-ATTCAT-TATATAT
1 TAATTAATATATATAA
*
30634 TCAAATAAGT-T-TATAA
1 T-AATTAA-TATATATAA
* * *
30650 TTATTATATATAAATAT
1 TAATTA-ATATATATAA
*
30667 TAAGTACATA-ATAATAA
1 TAATTA-ATATAT-ATAA
* *
30684 GTATTTAATTATAAATAGA
1 -TAATTAA-TATATATA-A
*
30703 -AATATAATATTTAATAA
1 TAAT-TAATATAT-ATAA
30720 GTTAATTAAT-TATATAA
1 --TAATTAATATATATAA
30737 TAATT--TATATATAA
1 TAATTAATATATATAA
30751 T-ATT-ATATAT-TAA
1 TAATTAATATATATAA
30764 T
1 T
30765 TATACTTTTT
Statistics
Matches: 121, Mismatches: 21, Indels: 41
0.66 0.11 0.22
Matches are distributed among these distances:
13 8 0.07
14 20 0.17
15 14 0.12
16 23 0.19
17 30 0.25
18 17 0.14
19 6 0.05
20 3 0.02
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (16 bp):
TAATTAATATATATAA
Found at i:30739 original size:20 final size:19
Alignment explanation
Indices: 30677--30739 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 19
30667 TAAGTACATA
*
30677 ATAATAAGTATTTAATTAT
1 ATAATAAGTAATTAATTAT
*
30696 A-AAT-AGAAATATAA-TAT
1 ATAATAAGTAAT-TAATTAT
*
30713 TTAATAAGTTAATTAATTAT
1 ATAATAAG-TAATTAATTAT
30733 ATAATAA
1 ATAATAA
30740 TTTATATATA
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
17 7 0.21
18 9 0.26
19 6 0.18
20 12 0.35
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
ATAATAAGTAATTAATTAT
Found at i:30756 original size:12 final size:12
Alignment explanation
Indices: 30728--30760 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
30718 AAGTTAATTA
30728 ATTATATAATAAT
1 ATTATAT-ATAAT
30741 -TTATATATAAT
1 ATTATATATAAT
30752 ATTATATAT
1 ATTATATAT
30761 TAATTATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTATATATAAT
Found at i:31042 original size:20 final size:20
Alignment explanation
Indices: 31019--31058 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
31009 ATTATATTTA
31019 TTATA-TATTATAATAATATT
1 TTATAGTATTA-AATAATATT
31039 TTATAGTATTAAATAATATT
1 TTATAGTATTAAATAATATT
31059 AATTCATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
TTATAGTATTAAATAATATT
Found at i:31318 original size:14 final size:14
Alignment explanation
Indices: 31301--31344 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
31291 AAAAATTTTA
31301 AAATTTAAATATTT
1 AAATTTAAATATTT
31315 AAATTTAAATATTT
1 AAATTTAAATATTT
* * *
31329 AATTTTTATTATTT
1 AAATTTAAATATTT
31343 AA
1 AA
31345 TTATTTATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
AAATTTAAATATTT
Found at i:31336 original size:21 final size:21
Alignment explanation
Indices: 31297--31361 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
31287 AATTAAAAAT
*
31297 TTTAAA-ATTTAAATATTTAAA
1 TTTAAATATTT-AATTTTTAAA
*
31318 TTTAAATATTTAATTTTTATTA
1 TTTAAATATTTAATTTTTA-AA
*
31340 TTTAATTATTTATATTTATTAA
1 TTTAAATATTTA-ATTT-TTAA
31362 TAAATAAGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 13 0.36
22 16 0.44
23 4 0.11
24 3 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTAAATATTTAATTTTTAAA
Found at i:31342 original size:22 final size:21
Alignment explanation
Indices: 31309--31360 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
31299 TAAAATTTAA
*
31309 ATATTTA-AATTTAAATATTT
1 ATATTTATTATTTAAATATTT
* *
31329 AATTTTTATTATTTAATTATTT
1 -ATATTTATTATTTAAATATTT
31351 ATATTTATTA
1 ATATTTATTA
31361 ATAAATAAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATATTTATTATTTAAATATTT
Found at i:31345 original size:14 final size:13
Alignment explanation
Indices: 31309--31357 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
31299 TAAAATTTAA
**
31309 ATATTTAAATTTAA
1 ATATTT-AATTTTT
31323 ATATTTAATTTTT
1 ATATTTAATTTTT
31336 ATTATTTAATTATTT
1 A-TATTTAATT-TTT
31351 ATATTTA
1 ATATTTA
31358 TTAATAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 6 0.19
14 21 0.68
15 4 0.13
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
ATATTTAATTTTT
Found at i:32286 original size:26 final size:25
Alignment explanation
Indices: 32257--32305 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
32247 TTTCGAATTA
32257 CTAA-TATAAATTATATAATAAAATAG
1 CTAATTAT-AATTA-ATAATAAAATAG
*
32283 CTAATTATAATTAATATTAAAAT
1 CTAATTATAATTAATAATAAAAT
32306 TTGTTTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 9 0.43
26 9 0.43
27 3 0.14
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (25 bp):
CTAATTATAATTAATAATAAAATAG
Found at i:32664 original size:16 final size:16
Alignment explanation
Indices: 32643--32706 Score: 78
Period size: 16 Copynumber: 4.0 Consensus size: 16
32633 TGAAATTTAA
*
32643 TATATTATTAACTATT
1 TATATTATTAAATATT
32659 TATATTATTAAATA-T
1 TATATTATTAAATATT
*
32674 TATATTAATAACATATT
1 TATATTATTAA-ATATT
32691 TAATATT-TTAAATATT
1 T-ATATTATTAAATATT
32707 AAAATAATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
15 11 0.26
16 21 0.50
17 5 0.12
18 5 0.12
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TATATTATTAAATATT
Found at i:32702 original size:32 final size:31
Alignment explanation
Indices: 32643--32707 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 31
32633 TGAAATTTAA
*
32643 TATATTATTAACTATTTATATTATTAAATAT
1 TATATTAATAACTATTTATATTATTAAATAT
32674 TATATTAATAACATATTTAATATT-TTAAATAT
1 TATATTAATAAC-TATTT-ATATTATTAAATAT
32706 TA
1 TA
32708 AAATAATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
31 11 0.35
32 15 0.48
33 5 0.16
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (31 bp):
TATATTAATAACTATTTATATTATTAAATAT
Found at i:33021 original size:12 final size:14
Alignment explanation
Indices: 32991--33022 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
32981 CGAATTAATC
32991 TAATTAGGATTATA
1 TAATTAGGATTATA
33005 TAATTA-GATTA-A
1 TAATTAGGATTATA
33017 TAATTA
1 TAATTA
33023 AATTTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 5 0.28
14 6 0.33
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (14 bp):
TAATTAGGATTATA
Found at i:34603 original size:11 final size:11
Alignment explanation
Indices: 34584--34642 Score: 61
Period size: 11 Copynumber: 5.6 Consensus size: 11
34574 AATAATCAAT
*
34584 TTATTTAATTA
1 TTATATAATTA
34595 TTATATAATTA
1 TTATATAATTA
34606 TTA-AT-ATTA
1 TTATATAATTA
*
34615 TTATATAATAA
1 TTATATAATTA
* *
34626 TAATA-AAATA
1 TTATATAATTA
34636 TTATATA
1 TTATATA
34643 TGATATTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 7 0.18
10 11 0.28
11 21 0.54
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TTATATAATTA
Found at i:34604 original size:20 final size:21
Alignment explanation
Indices: 34581--34623 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
34571 TATAATAATC
*
34581 AATTTATTTA-ATTATTATAT
1 AATTTATTAATATTATTATAT
34601 AA-TTATTAATATTATTATAT
1 AATTTATTAATATTATTATAT
34621 AAT
1 AAT
34624 AATAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
AATTTATTAATATTATTATAT
Found at i:34738 original size:17 final size:17
Alignment explanation
Indices: 34688--34734 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 17
34678 TAATATAAAT
*
34688 TTATAATTTATAATAAG
1 TTATAATTAATAATAAG
34705 TTATTATATATAATAATAA-
1 TTA-TA-AT-TAATAATAAG
34724 TTATAATTAAT
1 TTATAATTAAT
34735 TAATTATATC
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 4 0.15
17 5 0.19
18 4 0.15
19 5 0.19
20 8 0.31
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
TTATAATTAATAATAAG
Found at i:34906 original size:30 final size:30
Alignment explanation
Indices: 34872--34934 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
34862 ATATACAAAT
34872 TATAATCTATTCAATAAATAATTAT-ATTAA
1 TATAATCTATTCAATAAAT-ATTATAATTAA
* * *
34902 TATAATTTATTTAATTAATATTATAATTAA
1 TATAATCTATTCAATAAATATTATAATTAA
34932 TAT
1 TAT
34935 TATTAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 5 0.17
30 24 0.83
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (30 bp):
TATAATCTATTCAATAAATATTATAATTAA
Found at i:34936 original size:18 final size:17
Alignment explanation
Indices: 34879--34944 Score: 54
Period size: 14 Copynumber: 4.1 Consensus size: 17
34869 AATTATAATC
34879 TATTCAATA-AATAATTA
1 TATT-AATATAATAATTA
34896 TATTAATATAAT--TTA
1 TATTAATATAATAATTA
34911 T-TTAAT-TAAT-ATTA
1 TATTAATATAATAATTA
*
34925 TAATTAATATTATTAATTA
1 T-ATTAATA-TAATAATTA
34944 T
1 T
34945 CTTAGATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
13 4 0.10
14 9 0.22
15 4 0.10
16 9 0.22
17 7 0.17
18 3 0.07
19 5 0.12
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTAATATAATAATTA
Found at i:34939 original size:21 final size:19
Alignment explanation
Indices: 34885--34986 Score: 68
Period size: 18 Copynumber: 5.3 Consensus size: 19
34875 AATCTATTCA
*
34885 ATAAATAATTATATTA-A-T
1 ATAATTAATT-TATTATATT
*
34903 ATAATTTATTTAATTAATATT
1 ATAATTAATTT-ATT-ATATT
34924 ATAATTAATATTATTA-ATT
1 ATAATTAAT-TTATTATATT
* *
34943 AT-CTTAGATTTATTATTAAT
1 ATAATTA-ATTTATTA-TATT
* *
34963 ATAATTAAATTATTTTATT
1 ATAATTAATTTATTATATT
34982 ATAAT
1 ATAAT
34987 ATTATTCTAT
Statistics
Matches: 66, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
17 1 0.02
18 20 0.30
19 16 0.24
20 12 0.18
21 15 0.23
22 2 0.03
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (19 bp):
ATAATTAATTTATTATATT
Found at i:34990 original size:30 final size:29
Alignment explanation
Indices: 34895--34990 Score: 72
Period size: 30 Copynumber: 3.2 Consensus size: 29
34885 ATAAATAATT
* *
34895 ATATTAATATAATTTATTTAATTAATATTAT-
1 ATATTAATATAA-TTAATT-ATT-TTATTATA
* *
34926 A-ATTAATATTATTAATTATCTTAGATT-TA
1 ATATTAATATAATTAATTAT-TT-TATTATA
*
34955 TTATTAATATAATTAAATTATTTTATTATA
1 ATATTAATATAATT-AATTATTTTATTATA
34985 ATATTA
1 ATATTA
34991 TTCTATAATT
Statistics
Matches: 51, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
28 3 0.06
29 12 0.24
30 29 0.57
31 7 0.14
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (29 bp):
ATATTAATATAATTAATTATTTTATTATA
Found at i:35066 original size:13 final size:15
Alignment explanation
Indices: 35048--35093 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
35038 CAAATTTAAA
35048 ATTAATA-AATTA-T
1 ATTAATATAATTATT
35061 ATTAATATTAATTATT
1 ATTAATA-TAATTATT
* *
35077 ATTAACATAATAATT
1 ATTAATATAATTATT
35092 AT
1 AT
35094 CATTATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 7 0.25
15 14 0.50
16 7 0.25
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTAATATAATTATT
Found at i:35087 original size:21 final size:22
Alignment explanation
Indices: 35063--35115 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
35053 TAAATTATAT
35063 TAATATTAATTATTATT-AACA
1 TAATATTAATTATTATTAAACA
*
35084 TAATAATT-ATCATTATTAAACA
1 TAAT-ATTAATTATTATTAAACA
35106 -AAT-TTAATTA
1 TAATATTAATTA
35116 AAAAATTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
19 2 0.07
20 3 0.11
21 15 0.56
22 7 0.26
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATATTAATTATTATTAAACA
Found at i:35297 original size:21 final size:21
Alignment explanation
Indices: 35233--35445 Score: 156
Period size: 21 Copynumber: 9.3 Consensus size: 21
35223 TTTAATTAAG
*
35233 TTTAAGACTCAAAGATTCTCA
1 TTTAAGACTTAAAGATTCTCA
*
35254 TTTGAGGATTTCTTAAAGATTCTCA
1 TTT-AAGA---CTTAAAGATTCTCA
* * *
35279 TTTATGACTCAAAGTTTCTCA
1 TTTAAGACTTAAAGATTCTCA
* *
35300 TTTCAGGATTTCTTAAAGATTTTCA
1 TTT-AAGA---CTTAAAGATTCTCA
*
35325 TTTAAGACTTAAAGATTCTTA
1 TTTAAGACTTAAAGATTCTCA
* *
35346 TTTGAGGATTTCTTAAAGATTCTTA
1 TTT-AAGA---CTTAAAGATTCTCA
*
35371 TTTAAGACTCAAAGATTCTCA
1 TTTAAGACTTAAAGATTCTCA
35392 TTTGAAGATTTCTTAAAGATTCTCA
1 TTT-AAGA---CTTAAAGATTCTCA
* *
35417 TTTATGACTCAAAGATTCTCA
1 TTTAAGACTTAAAGATTCTCA
35438 TTTGAAGA
1 TTT-AAGA
35446 TTTATTAATT
Statistics
Matches: 155, Mismatches: 20, Indels: 33
0.75 0.10 0.16
Matches are distributed among these distances:
21 64 0.41
22 16 0.10
24 12 0.08
25 63 0.41
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (21 bp):
TTTAAGACTTAAAGATTCTCA
Found at i:35308 original size:46 final size:46
Alignment explanation
Indices: 35233--35453 Score: 343
Period size: 46 Copynumber: 4.8 Consensus size: 46
35223 TTTAATTAAG
35233 TTTAAGACTCAAAGATTCTCATTTGAGGATTTCTTAAAGATTCTCA
1 TTTAAGACTCAAAGATTCTCATTTGAGGATTTCTTAAAGATTCTCA
* * * *
35279 TTTATGACTCAAAGTTTCTCATTTCAGGATTTCTTAAAGATTTTCA
1 TTTAAGACTCAAAGATTCTCATTTGAGGATTTCTTAAAGATTCTCA
* * *
35325 TTTAAGACTTAAAGATTCTTATTTGAGGATTTCTTAAAGATTCTTA
1 TTTAAGACTCAAAGATTCTCATTTGAGGATTTCTTAAAGATTCTCA
*
35371 TTTAAGACTCAAAGATTCTCATTTGAAGATTTCTTAAAGATTCTCA
1 TTTAAGACTCAAAGATTCTCATTTGAGGATTTCTTAAAGATTCTCA
* * *
35417 TTTATGACTCAAAGATTCTCATTTGAAGATTTATTAA
1 TTTAAGACTCAAAGATTCTCATTTGAGGATTTCTTAA
35454 TTATATTTAA
Statistics
Matches: 158, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 158 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.43
Consensus pattern (46 bp):
TTTAAGACTCAAAGATTCTCATTTGAGGATTTCTTAAAGATTCTCA
Found at i:35401 original size:14 final size:14
Alignment explanation
Indices: 35381--35420 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
35371 TTTAAGACTC
35381 AAAGATTCTCATTT
1 AAAGATTCTCATTT
*
35395 GAAGATT-TC--TT
1 AAAGATTCTCATTT
35406 AAAGATTCTCATTT
1 AAAGATTCTCATTT
35420 A
1 A
35421 TGACTCAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 6
0.72 0.07 0.21
Matches are distributed among these distances:
11 8 0.38
12 2 0.10
13 2 0.10
14 9 0.43
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (14 bp):
AAAGATTCTCATTT
Found at i:36068 original size:51 final size:49
Alignment explanation
Indices: 35985--36080 Score: 122
Period size: 51 Copynumber: 1.9 Consensus size: 49
35975 TTTTATTTGG
* * *
35985 ATTTCTAAATTTTCCATCATTTGGGTTAATTTAGAAATATTTTTTTTTGAA
1 ATTTCTAAATTTTCCACCATTTGGATTAATTTA-AAA-ATTCTTTTTTGAA
*
36036 ATTTCTAAATTTTTCACCATTTGGATCT-ATTTAAAAATTCTTTTT
1 ATTTCTAAATTTTCCACCATTTGGAT-TAATTTAAAAATTCTTTTT
36081 ATTTCTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
49 8 0.20
50 3 0.08
51 28 0.70
52 1 0.03
ACGTcount: A:0.29, C:0.10, G:0.07, T:0.53
Consensus pattern (49 bp):
ATTTCTAAATTTTCCACCATTTGGATTAATTTAAAAATTCTTTTTTGAA
Found at i:36282 original size:16 final size:16
Alignment explanation
Indices: 36261--36291 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36251 ATTTTCAACC
*
36261 AATTTTTTATTTTTTT
1 AATTTTTAATTTTTTT
36277 AATTTTTAATTTTTT
1 AATTTTTAATTTTTT
36292 GTTTGAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
AATTTTTAATTTTTTT
Found at i:36496 original size:12 final size:12
Alignment explanation
Indices: 36481--36516 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
36471 TTAAAAATAA
36481 TATTAATTAATT
1 TATTAATTAATT
36493 TATTAATTAA-T
1 TATTAATTAATT
36504 TA-TAATTAATT
1 TATTAATTAATT
36515 TA
1 TA
36517 AATATAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 7 0.30
11 6 0.26
12 10 0.43
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TATTAATTAATT
Found at i:38123 original size:18 final size:19
Alignment explanation
Indices: 38099--38199 Score: 60
Period size: 19 Copynumber: 5.0 Consensus size: 19
38089 TAGTTATAAT
* *
38099 TAATAATATTATTAATTTA
1 TAATAATAATAATAATTTA
38118 -AATAATAATAATAATTTA
1 TAATAATAATAATAATTTA
*
38136 TAATACATGTAATAACCTAAAGTTA
1 TAATA-A--TAATAA--T-AATTTA
* * *
38161 TAATTATTATAATTATTTA
1 TAATAATAATAATAATTTA
* *
38180 TAATATTTATATATAATTTA
1 TAATAATAATA-ATAATTTA
38200 ATATCTAAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
18 16 0.25
19 17 0.27
20 9 0.14
22 11 0.17
24 2 0.03
25 9 0.14
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.47
Consensus pattern (19 bp):
TAATAATAATAATAATTTA
Found at i:38172 original size:9 final size:10
Alignment explanation
Indices: 38158--38190 Score: 52
Period size: 9 Copynumber: 3.5 Consensus size: 10
38148 TAACCTAAAG
38158 TTATAATTA-
1 TTATAATTAT
38167 TTATAATTAT
1 TTATAATTAT
38177 TTATAA-TAT
1 TTATAATTAT
38186 TTATA
1 TTATA
38191 TATAATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 17 0.74
10 6 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTATAATTAT
Found at i:38353 original size:23 final size:22
Alignment explanation
Indices: 38314--38380 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
38304 TTATATGATT
*
38314 AATATATTAAAGCATATAATATA
1 AATATATTAAA-TATATAATATA
38337 AATATAATTAAATATATAA-AT-
1 AATAT-ATTAAATATATAATATA
* *
38358 AATAGATAAAATACTATAATATA
1 AATATATTAAATA-TATAATATA
38381 GTATCTTCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 7 0.19
21 9 0.24
22 4 0.11
23 11 0.30
24 6 0.16
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (22 bp):
AATATATTAAATATATAATATA
Found at i:38788 original size:20 final size:20
Alignment explanation
Indices: 38759--38796 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
38749 TTAATAATAT
*
38759 ATAAATTTTTAAGTATATTA
1 ATAAAGTTTTAAGTATATTA
38779 ATAAAGTTTTAAGTATAT
1 ATAAAGTTTTAAGTATAT
38797 AAACATAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (20 bp):
ATAAAGTTTTAAGTATATTA
Found at i:38951 original size:21 final size:17
Alignment explanation
Indices: 38912--38961 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
38902 ATAATTATGT
38912 ATATTAATAAATATTTA
1 ATATTAATAAATATTTA
38929 ATATTAATAAATATTTA
1 ATATTAATAAATATTTA
38946 A-A-TAAT--ATATTTA
1 ATATTAATAAATATTTA
38959 ATA
1 ATA
38962 ATAGTTAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 8 0.25
14 1 0.03
15 4 0.12
16 1 0.03
17 18 0.56
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATTAATAAATATTTA
Done.